REAGENT or RESOURCE	SOURCE	IDENTIFIER
Antibodies
Cleaved Caspase-3 (Asp175) Antibody	Cell Signaling	Cat#9669s; RRID:AB_2341188
Bacterial and Virus Strains
E. coli BL21(DE3)	Lucigen	Cat#60401
E. coli XL10-Gold Ultracompetent Cells	Agilent	Cat#200315
One shot Stbl3 Chemical Competent cells E.coli	ThermoFisher	Cat#C737303
Chemicals, Peptides, and Recombinant Proteins
Terrific Broth	Research Products International	Cat#T5100-5000.0
Luria Broth	Research Products International	Cat#L24400
Isopropyl β-D-1-thiogalactopyranoside (IPTG)	American Bioanalytical	Cat#AB00841-00010
NuPAGE LDS Sample Buffer (4X)	Thermo Fisher	Cat#NP0008
Dithiothreitol (DTT)	American Bioanalytical	Cat#AB00490-00100
SimplyBlue SafeStain	Thermo Fisher	Cat#LC6060
KOD Hot Start DNA polymerase	Novagen	Cat#710863
Rabbit 40S ribosome	Lomakin and Steitz, 2013	N/A
Recombinant Nsp1	This paper	N/A
Recombinant eIF3j	This paper	N/A
DPBS, no calcium, no magnesium	GIBCO	Cat#14190250
DMEM, high glucose,pyruvate	GiBCO	Cat#11995065
Fetal Bovine Serum	Corning	Cat#35-011-CV
Penicillin-Streptomycin (10,000 U/mL)	GIBCO	Cat#15140122
QIAquick gel extraction KIt	QIAGEN	Cat#28706
E-Gel Low Range Quantitative DNA Ladder	ThermoFisher	Cat#12373031
Gibson Assembly Master Mix	NEB	Cat#E2611
Phusion Flash High-Fidelity PCR Master Mix	ThermoFisher	Cat#F548L
QIAGEN Plasmid Maxi Kit	QIAGEN	Cat#12162
Fixation/Permeabilization Solution Kit	BD	Cat#554714
FastDigest BshTI	ThermoFisher	Cat#FD1464
FastDigest BstXI	ThermoFisher	Cat#FD1024
FastDigest XhoI	ThermoFisher	Cat#FD0694
FastDigest KpnI	ThermoFisher	Cat#FD0524
CellTiter-Glo® Luminescent Cell Viability Assay	Promega	Cat#G7572
SF Cell Line 4D-NucleofectorTM X Kit L	Lonza	Cat# V4XC-2012
RNeasy Plus Mini Kit (250)	QIAGEN	Cat# 74136
NEBNext Ultra II Directional RNA Library Prep Kit for Illumina	NEB	Cat# E7760S
NEBNext® Multiplex Oligos for Illumina® (Index Primers Set 1)	NEB	Cat# E7335S
XenoLight D-Luciferin - K+ Salt Bioluminescent Substrate	Perkin Elmer	Cat#122799
M-MLV Reverse Transcriptase	Sigma	Cat# 11062603001
Deposited Data
Structure of the Nsp1-40S complex	This paper	PDB: 7JQB
Structure of the Nsp1-40S-CrPV IRES complex	This paper	PDB: 7JQC
Cryo-EM map of the Nsp1-40S complex	This paper	EMD: 22432
Cryo-EM map of the Nsp1-40S-CrPV IRES complex	This paper	EMD: 22433
Source data and summary statistics of cellular viability effect by introduction of SARS-CoV-2 viral proteins and mutants	This paper	Table S2
Processed Nsp1 mRNA-seq dataset and differential expression analysis	This paper	Table S3 GEO/SRA accession number: PRJNA667046
DAVID pathway analysis of Nsp1 differentially expressed gene sets	This paper	Table S4
Experimental Models: Cell Lines
H1299	ATCC	ATCC® CRL-5803
VeroE6	ATCC	ATCC® CRL-1586
Oligonucleotides
All standard cloning primers for Gibson assembly	This paper	Table S1
Amplicon primers for cloning	This paper	Table S1
ACTB (hs01060665_g1)	Thermo Fisher	Cat#4331182
NSP1 Taqman Probe	Invitrogen	In this paper
Recombinant DNA
pETDUET-1	EMD Millipore	Cat#71146
pMAL system	New England Biolabs	Cat#E8200S
Plasmid: 6xHis-Nsp1 in pETDUET-1	This paper	N/A
Plasmid: 6xHis-MBP-Nsp1 in pMAT9S (lab-made p-MAL derivative)	This paper	N/A
Plasmid: 6xHis-eIF3j in pETDUET-1	This paper	N/A
pcDNA3.1	Addgene	Cat#52535
pVPSB empty	This paper	N/A
pVPSB-ORFs	This paper	N/A
Nsp1 mutant1	This paper	N/A
Nsp1 mutant3	This paper	N/A
Nsp1 mutant4	This paper	N/A
Lenti-Fluc-Puro	This paper	N/A
Software and Algorithms
Phenix (v1.18.2)	Adams et al., 2010	https://www.phenix-online.org/
Coot	Emsley et al., 2010	https://www2.mrc-lmb.cam.ac.uk/personal/pemsley/coot/
cryoSPARC (v2.15)	Punjani et al., 2017	https://cryosparc.com/
PyMOL (v2.1)	Schrödinger, LLC, 2015	https://pymol.org/2/
Chimera (v1.14)	Pettersen et al., 2004	https://www.cgl.ucsf.edu/chimera/
SerialEM	Mastronarde, 2005	https://bio3d.colorado.edu/SerialEM/
NanoAnalyze (v3.6.0)	TA Instruments	https://www.tainstruments.com/support/software-downloads-support/downloads/
Clustal Omega	Sievers et al., 2011	https://www.ebi.ac.uk/Tools/msa/clustalo/
FlowJo software 9.9.6	FlowJo	https://www.flowjo.com
Kallisto 0.45.0	Bray et al., 2016	https://pachterlab.github.io/kallisto/
Sleuth 0.30.0	Pimentel et al., 2017	https://pachterlab.github.io/sleuth/about
DAVID 6.8	Huang et al., 2009	https://david.ncifcrf.gov/
GSEA 4.0.3	Subramanian et al., 2005	https://www.gsea-msigdb.org/gsea/index.jsp
Other
Ni-NTA Agarose	QIAGEN	Cat#30230
HiTrap Q HP 5mL	GE Healthcare	Cat#17115401
HiLoad 16/600 Superdex 75 PG	GE Healthcare	Cat#28989333
NuPAGE 4-12% Bis-Tris Midi gels	Invitrogen	Cat#WG1403B0X
Protein Concentrators PES, 100K MWCO	Thermo Scientific	Cat#88503
Amicon Ultra-15 Centrifugal Filter Units 10kDa	Millipore Sigma	Cat#UFC901024
C-flat Holey Carbon for Cryo-TEM	Electron Microscopy Sciences	Cat#312-50